Featured Publications
Methods for mediation analysis with high-dimensional DNA methylation data: Possible choices and comparisons
Clark-Boucher D, Zhou X, Du J, Liu Y, Needham B, Smith J, Mukherjee B. Methods for mediation analysis with high-dimensional DNA methylation data: Possible choices and comparisons. PLOS Genetics 2023, 19: e1011022. PMID: 37934796, PMCID: PMC10655967, DOI: 10.1371/journal.pgen.1011022.Peer-Reviewed Original ResearchConceptsBayesian Sparse Linear Mixed ModelMediation analysisHigh-dimensional mediation analysisMulti-ethnic cohortEpigenetic researchHealth outcomesHigh-dimensional DNA methylation dataLinear mixed modelsDNA methylation dataContinuous outcomesEvaluate DNA methylationDNA methylationMethylation dataDNAm dataMixed modelsDiverse simulationsSeamless implementationModern statistical methodsMediation effectR packageUnited StatesOutcomes
2023
Mortality and Severe Complications Among Newly Graduated Surgeons in the United States
Howard R, Thelen A, Chen X, Gates R, Krumm A, Millis M, Gupta T, Brown C, Bandeh-Ahmadi H, Wnuk G, Yee C, Ryan A, Mukherjee B, Dimick J, George B. Mortality and Severe Complications Among Newly Graduated Surgeons in the United States. Annals Of Surgery 2023, 279: 555-560. PMID: 37830271, PMCID: PMC10939969, DOI: 10.1097/sla.0000000000006128.Peer-Reviewed Original ResearchConceptsYears of practiceSevere complicationsRelative riskGeneral surgeonsIndependent practiceYears of independent practiceCareer surgeonsRelative risk of mortalityAmerican Board of SurgerySurgeon yearsMixed modelsSurgeon characteristicsRate of mortalityMedicare claimsComplicationsSurgeonsPatient outcomesPatientsMortalityAmerican BoardOutcomesEvaluating Educational Outcomes Using Patient Outcomes of New Surgeons Performing Partial Colectomy Compared to Cholecystectomy
George B, Thelen A, Howard R, Kendrick D, Chen X, Clark M, Gupta T, Brown C, Bandeh-Ahmadi H, Luckoski J, Wnuk G, Fan Z, Krumm A, Ryan A, Buyske J, Mukherjee B, Dimick J. Evaluating Educational Outcomes Using Patient Outcomes of New Surgeons Performing Partial Colectomy Compared to Cholecystectomy. Academic Medicine 2023, 98: s143-s148. PMID: 37983406, DOI: 10.1097/acm.0000000000005368.Peer-Reviewed Original ResearchConceptsPartial colectomyPatient outcomesYears of practiceExperienced surgeonSurgeon yearsRisk-adjusted ratesCholecystectomyColectomyTraining of surgeonsInpatient cholecystectomyComplicationsImprove surgical educationPatientsEvaluate educational outcomesSurgeonsSurgical residentsBenefit patientsInpatient operationsResidency trainingStudy periodDeathOutcomesSurgical educationMixed modelsTrainingAssociation of Surgical Resident Competency Ratings With Patient Outcomes
Kendrick D, Thelen A, Chen X, Gupta T, Yamazaki K, Krumm A, Bandeh-Ahmadi H, Clark M, Luckoscki J, Fan Z, Wnuk G, Ryan A, Mukherjee B, Hamstra S, Dimick J, Holmboe E, George B. Association of Surgical Resident Competency Ratings With Patient Outcomes. Academic Medicine 2023, 98: 813-820. PMID: 36724304, DOI: 10.1097/acm.0000000000005157.Peer-Reviewed Original ResearchConceptsPatient outcomesGeneral surgery residentsMilestone ratingsSevere complicationsInpatient general surgical proceduresSurgery residentsGeneral surgical proceduresHigh-risk procedureCross-sectional studyCompetency ratingsGeneral surgical residentsRisk-adjusted ratesClinical outcomesIndex operationSurgical proceduresGeneral surgeonsMedicare populationComplicationsNational MedicareYears of practiceSecondary analysisClinical performanceSurgical residentsOutcomesMortality
2022
Assessing the added value of linking electronic health records to improve the prediction of self-reported COVID-19 testing and diagnosis
Clark-Boucher D, Boss J, Salvatore M, Smith J, Fritsche L, Mukherjee B. Assessing the added value of linking electronic health records to improve the prediction of self-reported COVID-19 testing and diagnosis. PLOS ONE 2022, 17: e0269017. PMID: 35877617, PMCID: PMC9312965, DOI: 10.1371/journal.pone.0269017.Peer-Reviewed Original ResearchConceptsElectronic health recordsHealth recordsCOVID-19-related outcomesCOVID-19 testingSurvey respondentsSelf-reported outcomesSelf-reported dataCOVID-19 outcomesElectronic recordsSurvey dataCOVID-19Prediction modelModel contextSurveyCOVID-19 diagnosisOutcomesPredictor variablesDigital surveyData sourcesCoronavirus disease 2019RespondentsPredictorsCOVID-19 casesDiagnosisRecords
2019
Bayesian Shrinkage Estimation of High Dimensional Causal Mediation Effects in Omics Studies
Song Y, Zhou X, Zhang M, Zhao W, Liu Y, Kardia S, Roux A, Needham B, Smith J, Mukherjee B. Bayesian Shrinkage Estimation of High Dimensional Causal Mediation Effects in Omics Studies. Biometrics 2019, 76: 700-710. PMID: 31733066, PMCID: PMC7228845, DOI: 10.1111/biom.13189.Peer-Reviewed Original ResearchConceptsMediation analysisEffect of socioeconomic statusPotential mediatorsMulti-Ethnic StudyCausal mediation analysisCardiometabolic outcomesDNA methylation regionsSocioeconomic statusHigh-throughput technologiesMediation effectGenomic dataEpidemiological dataMethylation regionsHigh-dimensional mediatorsBayesian inference methodsContinuous shrinkage priorsHigh-dimensional settingsBayesian shrinkage estimatorsJoint analysisOutcomesShrinkage priorsPathwayNull caseInference methodsBiomedical studiesA repeated measures study of phenol, paraben and Triclocarban urinary biomarkers and circulating maternal hormones during gestation in the Puerto Rico PROTECT cohort
Aker A, Ferguson K, Rosario Z, Mukherjee B, Alshawabkeh A, Calafat A, Cordero J, Meeker J. A repeated measures study of phenol, paraben and Triclocarban urinary biomarkers and circulating maternal hormones during gestation in the Puerto Rico PROTECT cohort. Environmental Health 2019, 18: 28. PMID: 30940137, PMCID: PMC6444601, DOI: 10.1186/s12940-019-0459-5.Peer-Reviewed Original ResearchConceptsUrinary biomarkersAssociated with adverse birth outcomesAdverse birth outcomesPregnant womenBirth outcomesAdverse outcomesSerum hormonesStudy visitsParaben biomarkersThyroid hormonesParaben exposurePercent changeHormoneBiomarker concentrationsMaternal hormonesBiomarkersOutcomesVisitsAssociationExposureGestationRandom interceptPregnancyThyroid
2018
Selection of nonlinear interactions by a forward stepwise algorithm: Application to identifying environmental chemical mixtures affecting health outcomes
Narisetty N, Mukherjee B, Chen Y, Gonzalez R, Meeker J. Selection of nonlinear interactions by a forward stepwise algorithm: Application to identifying environmental chemical mixtures affecting health outcomes. Statistics In Medicine 2018, 38: 1582-1600. PMID: 30586682, PMCID: PMC7134269, DOI: 10.1002/sim.8059.Peer-Reviewed Original Research
2017
Exposure enriched outcome dependent designs for longitudinal studies of gene–environment interaction
Sun Z, Mukherjee B, Estes J, Vokonas P, Park S. Exposure enriched outcome dependent designs for longitudinal studies of gene–environment interaction. Statistics In Medicine 2017, 36: 2947-2960. PMID: 28497531, PMCID: PMC5523112, DOI: 10.1002/sim.7332.Peer-Reviewed Original ResearchConceptsLongitudinal cohort studyCohort studyCase-only designLongitudinal studyG x E interactionNormative Aging StudyComplete-case analysisGene-environmentSampling designCase-controlVeterans AdministrationComplex human diseasesE interactionExposure informationAging StudyOutcome trajectoriesStratified samplingRetrospective genotypingIndividual exposureCovariate dataExposure effectsJoint effectsOutcomesTime-varying outcomeEnvironmental factors
2012
Likelihood‐based methods for regression analysis with binary exposure status assessed by pooling
Lyles R, Tang L, Lin J, Zhang Z, Mukherjee B. Likelihood‐based methods for regression analysis with binary exposure status assessed by pooling. Statistics In Medicine 2012, 31: 2485-2497. PMID: 22415630, PMCID: PMC3528351, DOI: 10.1002/sim.4426.Peer-Reviewed Original ResearchConceptsPopulation-based case-control study of colorectal cancerCase-control study of colorectal cancerPopulation-based case-control studyStudy of colorectal cancerExposure statusBinary outcomesRegression modelsCase-control sampleLogistic regression modelsGene-disease associationsObserved binary outcomeStudy designEpidemiological studiesColorectal cancerAssess exposureMaximum likelihood analysisRegression analysisLikelihood-based methodsExposure assessmentMaximum likelihood approachLikelihood approachCross-sectionSimulation studyOutcomesLikelihood analysisPrincipal interactions analysis for repeated measures data: application to gene–gene and gene–environment interactions
Mukherjee B, Ko Y, VanderWeele T, Roy A, Park S, Chen J. Principal interactions analysis for repeated measures data: application to gene–gene and gene–environment interactions. Statistics In Medicine 2012, 31: 2531-2551. PMID: 22415818, PMCID: PMC4046647, DOI: 10.1002/sim.5315.Peer-Reviewed Original ResearchConceptsGene-environment interactionsGene-geneLongitudinal cohort studyNormative Aging StudyHealth outcomesMain effect termsMeasured outcomesAging StudyOccupational historyEpistasis modelsEnvironmental exposuresMain effectLongitudinal natureLongitudinal dataResampling-based methodsCell meansClassification arrayQuantitative traitsInteraction analysisRobust classLeading eigenvaluesSimulation studyTime-varying effectsSubject-specificOutcomes
2011
Sensitivity analysis for interactions under unmeasured confounding
VanderWeele T, Mukherjee B, Chen J. Sensitivity analysis for interactions under unmeasured confounding. Statistics In Medicine 2011, 31: 2552-2564. PMID: 21976358, PMCID: PMC4226658, DOI: 10.1002/sim.4354.Peer-Reviewed Original Research